Methods and compositions for the detection, classification, and diagnosis of schizophrenia

Abstract

Disclosed are compositions and methods for the diagnosis and classification of schizophrenia.

What is claimed is: 
     
         1 . A method of predicting schizophrenia type in a subject having schizophrenia, comprising:
 obtaining a biological sample from a subject comprising DNA (e.g., plasma or tissue extracts);   detecting by genome array, low density PCR array or oligo array single nucleotide polymorphisms (SNPs) consisting of 19_2, 88_64, 81_13, 87_76, 58_29, 83_41, 9_9, 10_4, 14_6, 56_30, 42_37, 65_25, 71_55, 12_11, 90_78, 77_5, 88_8, 51_28, 59_48, 41_12, 22_11, 13_12, 31_22, 85_84, 87_84, 16_10, 56_19, 75_31, 81_73, 85_23, 21_8, 76_74, 61_39, 75_67, 76_63, 81_3, 87_26, 88_43, 25_10, 12_2, 52_42, and 54_51; and   assigning the subject to a schizophrenia type selected from (i) severe process, with positive and negative symptom schizophrenia; (ii) positive and negative schizophrenia; (iii) negative schizophrenia; (iv) positive schizophrenia; (v) severe process, positive schizophrenia; (vi) moderate process, disorganized negative schizophrenia; (vii) moderate process, positive and negative schizophrenia; or (viii) moderate process, continuous positive schizophrenia.   
     
     
         2 . The method of  claim 1 , wherein the one or more SNP sets are selected from the group consisting of 88_8, 90_78, 65_25, 42_37, 71_55, 56_30, 77_5, 12_11, 51_28, 59_48, 10_4, 83_41, 58_29, 9_9, 14_6, 87_76, 88_64, and 81_13. 
     
     
         3 . The method of  claim 1 , wherein the one or more SNP sets are selected from the group consisting of 10_4, 83_41, 58_29, 9_9, 14_6, 87_76, 88_64, and 81_13. 
     
     
         4 . The method of  claim 1 , wherein the one or more SNP sets are selected from the group consisting of 87_76, 88_64, and 81_13. 
     
     
         5 . The method of  claim 1 , wherein the system selects for severe process, with positive and negative symptom schizophrenia, and wherein the one or more SNP sets comprise 56_30, 75_67, or 76_74. 
     
     
         6 . The method of  claim 1 , wherein the system selects for positive and negative Schizophrenia, and wherein the one or more SNP sets comprise 59_48, 71_55, 21_8, 54_51, 31_22, 65_25, or 87_84. 
     
     
         7 . The method of  claim 1 , wherein the system selects for negative Schizophrenia, and wherein the one or more SNP sets comprise 58_29, 9_9, 22_11, 81_3, 13_12, 61_39, 10_4, 81_73, 75_31, 56_19, 88_8, or 12_2. 
     
     
         8 . The method of  claim 1 , wherein the system selects for Positive Schizophrenia, and wherein the one or more SNP sets comprise 88_64, 85_84, or 41_12. 
     
     
         9 . The diagnostic system of  claim 1 , wherein the system selects for severe process, positive schizophrenia, and wherein the one or more SNP sets comprise 77_5, 81_13, or 25_10. 
     
     
         10 . The method of  claim 1 , wherein the system selects for moderate process, disorganized negative schizophrenia, and wherein the one or more SNP sets comprise 19_2, 52_42, 90_78, 12_11, 87_76, or 14_6. 
     
     
         11 . The method of  claim 1 , wherein the system selects for moderate process, positive and negative schizophrenia, and wherein the one or more SNP sets comprise 42_37, 88_43, or 51_28. 
     
     
         12 . The method of  claim 1 , wherein the system selects for moderate process, continuous positive schizophrenia, and wherein the one or more SNP sets comprise 16_10, 83_41, or 87_26. 
     
     
         13 . The method of  claim 1 , further comprising one or more phenotype panels, wherein each phenotype panel comprises one or more phenotypic sets selected from the group comprising 15_13, 12_11, 21_1, 50_46, 9_6, 46_23, 54_11, 30_17, 18_13, 27_6, 61_18, 64_11, 65_64, 12_4, 42_9, 52_28, 7_3, 48_41, 26_8, 69_41, 10_5, 17_2, 63_24, 69_66, 22_13, 53_6, 59_41, 20_19, 55_7, 34_17, 27_7, 4_1, 66_54, 8_4, 51_38, 42_7, 18_3, 46_29, 5_2, 57_39, 11_5, 24_4, 48_7, 28_23, or 25_20. 
     
     
         14 . The method of  claim 13 , wherein the system selects for severe process, with positive and negative symptom schizophrenia, and wherein the one or more phenotypic sets comprise 15_13, 12_11, 21_1, 50_46, 9_6, 46_23, 54_11, 30_17, 18_13, 27_6, 61_18, 64_11, or 65_64. 
     
     
         15 . The method of  claim 13 , wherein the system selects for positive and negative schizophrenia, and wherein the one or more phenotypic sets comprise 12_4 or 42_9. 
     
     
         16 . The diagnostic system of  claim 14 , wherein the system selects for negative schizophrenia, and wherein the one or more phenotypic sets comprise 52_28, 7_3, 48_41, 26_8, 69_41, 10_5, or 17_2. 
     
     
         17 . The diagnostic system of  claim 14 , wherein the system selects for positive schizophrenia, and wherein the one or more phenotypic sets comprise 63_24 and 69_66. 
     
     
         18 . The diagnostic system of  claim 14 , wherein the system selects for severe process, positive schizophrenia, and wherein the one or more phenotypic sets comprise 22_13, 18_13, 53_6, 59_41, 20_19, 55_7, 34_17, 69_66, 27_7, 18_13, 4_1, 66_54, or 8_4. 
     
     
         19 . The method of  claim 13 , wherein the system selects for moderate process, disorganized negative schizophrenia, and wherein the one or more phenotypic sets comprise 51_38, 42_7, 18_3, or 46_29. 
     
     
         20 . The method of  claim 13 , wherein the system selects for moderate process, positive and negative schizophrenia, and wherein the one or more phenotypic sets comprise 5_2, 57_39, 11_5, or 24_4. 
     
     
         21 . The method of  claim 13 , wherein the system selects for moderate process, continuous positive schizophrenia, and wherein the one or more phenotypic sets comprise 48_7, 28_23, or 25_20. 
     
     
         22 . The method of  claim 1 , wherein the method further comprises a means for reading the one or more SNP sets, a computer operationally linked to the means for reading the one or more SNP sets, and a display for visualizing the diagnostic risk; wherein the computer identifies the SNP, compares the SNP profile to a control, and catalogs that data, wherein the computer provides an input source for inputting phenotypic data into a phenomic database; wherein the computer compares the SNP and phenotypic data and calculates relationships between the genomic and phenotypic data; wherein the computer compares the genomic and phenotypic relationship data to a reference standard; and wherein the computer outputs the relationship data and the standard on the display. 
     
     
         23 . A method of diagnosing a subject with schizophrenia comprising obtaining a biological sample from the subject, obtaining clinical data from the subject, and applying the biological sample and clinical data to the diagnostic system of  claim 1 . 
     
     
         24 . A method of diagnosing a subject with schizophrenia and determining the schizophrenia class comprising: a. obtaining a biological sample from the subject; b. obtaining clinical data from the subject; c. applying the biological sample and clinical data to a diagnostic system for diagnosing schizophrenia, wherein the diagnostic system comprises one or more expression panels and one or more phenotypic panels; d. comparing the genomic and phenotypic panels results to a reference standard; wherein the presence of one or more SNP sets and phenotypic sets in the subjects sample indicates the presence of schizophrenia, and wherein the genomic and phenotypic profile of the reference standard most closely correlating with the subjects genomic and phenotypic profile indicates schizophrenia class of the subject. 
     
     
         25 . The method of  claim 23 , wherein the one or more expression panels each comprise one or more of the single nucleotide polymorphism (SNP) sets selected from the group comprising 19_2, 88_64, 81_13, 87_76, 58_29, 83_41, 9_9, 10_4, 14_6, 56_30, 42_37, 65_25, 71_55, 12_11, 90_78, 77_5, 88_8, 51_28, 59_48, 41_12, 22_11, 13_12, 31_22, 85_84, 87_84, 16_10, 56_19, 75_31, 81_73, 85_23, 21_8, 76_74, 61_39, 75_67, 76_63, 81_3, 87_26, 88_43, 25_10, 12_2, 52_42, or 54_51. 
     
     
         26 . The method of  claim 23 , wherein the one or more phenotype panels each comprise one or more phenotypic sets selected from the group comprising 15_13, 12_11, 21_1, 50_46, 9_6, 46_23, 54_11, 30_17, 18_13, 27_6, 61_18, 64_11, 65_64, 12_4, 42_9, 52_28, 7_3, 48_41, 26_8, 69_41, 10_5, 17_2, 63_24, 69_66, 22_13, 53_6, 59_41, 20_19, 55_7, 34_17, 27_7, 4_1, 66_54, 8_4, 51_38, 42_7, 18_3, 46_29, 5_2, 57_39, 11_5, 24_4, 48_7, 28_23, or 25_20.